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Table 2 GEE, FBAT, and linkage results

From: Framingham Heart Study genome-wide association: results for pulmonary function measures

2a Top Association results based on GEE p-value
Phenotype SNP Chr Physical position GEE p-value FBAT p-value Gene Region
fev1slope 1. rs3867498 15 22629880 1.36 × 10 -06 0.07 SNRPN
meanfvc 2. rs441051 7 93698651 2.16 × 10 -06 0.005 COL1A2
meanratio 3. rs2838815 21 45454018 2.63 × 10 -06 0.0002 ADARB1
ppfvc 4. rs1455782 15 90851970 4.23 × 10 -06 0.18 FLJ32831
meanfvc 5. rs10516541 4 108472826 4.32 × 10 -06 7.19 × 10-05  
meanfev1     1.7 × 10 -05 0.0002  
ppratio 6. rs310558 8 51575144 5.14 × 10 -06 0.14 SNTG1
ppfev1 7. rs3820928 2 227598971 5.33 × 10 -06 0.0005 RHBDD1
ppfef 8. rs730532 14 51588561 5.89 × 10 -06 0.15 NID2
ppfefrat 9. rs808225 14 57467669 7.38 × 10 -06 0.0008  
ppratio     1.45 × 10 -05 0.007  
ppfef 10. rs4129267 1 151239337 7.39 × 10 -06 0.07 IL6R
ppfev1 11. rs2906966* 17 15272242 8.31 × 10 -06 5.03 × 10-05 CDRT4
ppfvc 12. rs357394 7 137506642 8.77 × 10 -06 0.14  
fefslope 13. rs1994169 12 33436783 9.55 × 10 -06 0.05 SYT10
meanratio 14. rs2225434 21 45458574 9.68 × 10 -06 0.0004 ADARB1
meanfvc 15. rs156697(a) 10 106029175 9.78 × 10 -06 9.42 × 10-05 GSTO2
meanfev1     1.8 × 10 -05 0.002  
ppfefrat 16. rs564425 13 46797096 1.03 × 10 -05 0.02  
ppfef 17. rs10498441 14 51613974 1.06 × 10 -05 0.28 NID2
ppratio 18. rs880713 2 128847844 1.11 × 10 -05 0.26 AK128224
ppfefrat 19. rs811732 14 57456738 1.3 × 10 -05 0.20  
ppfvc 20. rs6558132 8 29526866 1.58 × 10 -05 0.74  
fev1slope 21. rs6972823 7 3009137 1.69 × 10 -05 0.10  
ppfef 22. rs9285611(b) 1 81895076 1.7 × 10 -05 0.07  
meanfev1 23. rs10504836 8 88669709 1.72 × 10 -05 0.28  
meanfev1 24. rs1491520 3 193243153 1.77 × 10 -05 0.12  
ppfvc 25. rs9300826 13 103001176 1.79 × 10 -05 0.11  
2b Top Association results based on FBAT p-value
Phenotype SNP Chr Physical position GEE p-value FBAT p-value Gene Region
ppratio 1. rs10922530 1 89139273 0.001 8.7 × 10 -07 CCBL2
ppfefrat     0.002 3.78 × 10 -06  
ppfef     0.005 2.36 × 10 -05  
ppfefrat 2. rs3753683 1 89139592 0.004 1.87 × 10 -06 CCBL2
ppratio     0.004 3.59 × 10 -06  
ppfef     0.01 1.42 × 10 -05  
ppratio 3. rs219349 14 59525168 0.01 6.15 × 10 -06 LRRC9
ppfefrat     0.04 4.91 × 10 -05  
ppratio 4. rs219391 14 59554684 0.02 6.18 × 10 -06 LRRC9
ppratio 5. rs219326 14 59512943 0.02 8.51 × 10 -06 LRRC9
ppfefrat     0.06 3.74 × 10 -05  
ppfefrat 6. rs1409149 1 89141170 0.005 9.12 × 10 -06 CCBL2
ppratio     0.005 1.08 × 10 -05  
ppfef     0.01 5.14 × 10 -05  
ppfvc 7. rs9299191 9 110944100 0.009 1.79 × 10 -05  
meanfvc 8. rs10515289(c) 5 99315845 0.17 2.21 × 10 -05  
ppfvc 9. rs10498137 2 222966943 0.05 2.23 × 10 -05 PAX3
ppfef 10. rs3858282 10 90424391 0.001 2.92 × 10 -05 LIPF
ppratio 11. rs905367 4 59896363 0.02 2.95 × 10 -05  
meanfvc 12. rs10495872 2 37915266 0.05 3.02 × 10 -05  
fev1slope 13. rs1347222 12 80896622 0.01 3.27 × 10 -05  
ppratio 14. rs2009488 4 59895895 0.03 3.43 × 10 -05  
meanfvc 15. rs6481257 10 58608558 0.02 3.52 × 10 -05  
ppratio 16. rs461951 14 59608986 0.02 3.63 × 10 -05 LRRC9
meanfev1 17. rs491552 6 151403169 0.01 3.86 × 10 -05 MTHFD1L
meanfev1 18. rs1910137 4 27087329 0.08 4.04 × 10 -05  
ppfvc 19. rs2831605(d) 21 28467064 0.03 4.41 × 10 -05  
ppfev1 20. rs2906966* 17 15272242 8.31 × 10-06 5.03 × 10 -05 CDRT4
fefslope 21. rs6740919 2 67531706 0.0009 5.17 × 10 -05 ETAA16
meanfev1 22. rs10498818 6 63134129 0.02 5.25 × 10 -05  
ppfefrat 23. rs1393593 4 59907689 0.06 5.44 × 10 -05  
ppfefrat 24. rs9312080 4 59891451 0.11 5.63 × 10 -05  
ppfefrat 25. rs7851363 9 20748306 0.006 5.7 × 10 -05 KIAA1797
2c Linkage peaks with LOD score > 2.0
Phenotype SNP Chr Physical position 1.5-LOD interval start 1.5-LOD interval end LOD score
meanfev1 rs2300081 6 168097526 165513097 170788550 2.89
fefslope rs5909594 X(e) 118057198 113970434 124311695 2.86
ppfev1 AGC001b 6 170788550 164268152 170788550 2.65
ppratio rs10497042 2 150675813 148296793 154203261 2.40
meanratio rs10518669 1 82811739 74999965 88728520(b) 2.37
ppfef rs2974490 5 113433775 95608129 124687730(c) 2.29
meanfvc rs10488908 21 21904704 19805361 34461762(d) 2.29
ppfev1 rs10518032 4 170322764 161768472 181501690 2.28
ppfvc rs10489542 1 225169260 213625196 233478438 2.17
ppfef rs721411 17 36902470 28313357 52519635 2.17
ppfev1 rs753765 17 57323782 45345729 59677087 2.17
meanfev1 rs4918762 10 114389096 102080914 122214789(a) 2.12
ppfvc rs10517825 4 166251091 156507719 191091333 2.02
  1. *) SNP occurring in both Table 2a and 2b
  2. a) SNP associated to meanfvc and meanfev1 in Table 2a under linkage peak for meanfev1 on chromosome 10.
  3. b) SNP associated to ppfef in Table 2a under linkage peak for meanratio on chromosome 1.
  4. c) SNP associated to meanfvc in Table 2b under linkage peak for ppfef on chromosome 5.
  5. d) SNP associated to ppfvc in Table 2b under linkage peak for meanfvc on chromosome 21.
  6. e) X chromosome linkage results are not available online